<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-12-01 05:36:39"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C00HBa0080C13-Su98d/GenomeThreader_SGN_U_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U590648" ref_strand="+" ref_description="SGN-U590648 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|113205316|gb|ABI34339.1| (e_value=2e-17) Polyprotein,; ">
      <seq>gcacctagcccatctggtactaaggcggtgacacctccaccaactgaggaagtggtaagagagggtgaggatggggagaatgaacaagtgcagaatgaggaattgccaccccaacctacccaagagatgatcaatcaggttcttgcttaccttagcgggttatctgatcaaggccaagcacctccagtgttttctgcactagcacctcaggctccggaggtacaacatgcgcctactgtgactccccgcatcgatacctcattggaaataggaacgtttccccgtctgactacagggcctataatgacaaatgatcagcatgaactttttagtaagttcttgaaattgaaacctcaagtctacaagggtgttgaatctgaggatgcctacgattttctggttgactgtcatgagctactacacaagatgggtatagtagaacggtttggtgttgagtttgtgacttatcagtttcaagggaacgccaaaatgtggtggcggtcacatgttgagtgtcaaccaacagaggcaccacgtatgacttgggcatcattct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0080C13.2" temp_strand="+" temp_description="C00HBa0080C13.2  CU929469.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0080C13 sequenced_by:sanger upload_account_name:uk">
        <position start="47641" stop="48796"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="47941" g_stop="48496" g_length="556"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="556" r_length="556" r_score="0.910"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0080C13.2" gen_strand="+" ref_id="SGN-U590648" ref_strand="+">
        <total_alignment_score>0.910</total_alignment_score>
        <cumulative_length_of_scored_exons>556</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0080C13.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U590648" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="47941" e_stop="48496"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCACCTGGCCCATCTGGTACTAGGGCGGTGACTCTTCCACCAACTGAGGAAGTGTTAAGAGAGGGTGAGGAAGGGGAAAATGAGCAAGTGCAGAATGAGGAATTACCACCCCAACCTCTCACAGAGATGATCAACCAGGTTCTTGCCTATCTTAGCGGGTTATCTGATCAAGGTCAGACACCTTCAGTGTTTTCTGCACCAGCACCTTAGGTTCCGGAGGTAAAACATGCAGCTACTGTGGCTCCCCACATGGATGCCTCATTGGAAATAGGCACGTTTCCCCGGTTGACTACAGGGCCTATAATGACAAGTGATAAGCATGAACTTTTTAGTAAGTTCTTGAAATTGAAACCCCCAGTCTTCAAGGGTGCTGAATCTGAGAATGCCTATGAGTTTCTGGTTGATTGTCATGAGCTACTACACAAGATGGGTATAGTAGAACGATTTGGCGTTGAGTTTGTGACTTATCAGTTTCAAGAGAATGCCAAAATGTGGTGGCGGTCACATGTTGACTGTCAACCAACAGAGGCACCACCTATGACTTGGGTATCATTCT</genome_strand>
        <mrna_strand>GCACCTAGCCCATCTGGTACTAAGGCGGTGACACCTCCACCAACTGAGGAAGTGGTAAGAGAGGGTGAGGATGGGGAGAATGAACAAGTGCAGAATGAGGAATTGCCACCCCAACCTACCCAAGAGATGATCAATCAGGTTCTTGCTTACCTTAGCGGGTTATCTGATCAAGGCCAAGCACCTCCAGTGTTTTCTGCACTAGCACCTCAGGCTCCGGAGGTACAACATGCGCCTACTGTGACTCCCCGCATCGATACCTCATTGGAAATAGGAACGTTTCCCCGTCTGACTACAGGGCCTATAATGACAAATGATCAGCATGAACTTTTTAGTAAGTTCTTGAAATTGAAACCTCAAGTCTACAAGGGTGTTGAATCTGAGGATGCCTACGATTTTCTGGTTGACTGTCATGAGCTACTACACAAGATGGGTATAGTAGAACGGTTTGGTGTTGAGTTTGTGACTTATCAGTTTCAAGGGAACGCCAAAATGTGGTGGCGGTCACATGTTGAGTGTCAACCAACAGAGGCACCACGTATGACTTGGGCATCATTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U591718" ref_strand="+" ref_description="SGN-U591718 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|48057631|gb|AAT39954.1| (e_value=1e-28) putative integrase [Solanum demissum]; ">
      <seq>gggatctgtcccaggcttggctaacgtcacagttttagcattacaatccaagattgcaaaatttggagaaagccaagtcatacccagaattacatcaaaatcaaccatttctaagataaccaagtctacataagtattgctccccacaaaagtcaccagaccagacctatatactttttcaactatcacagactcacccaccggagtagaaacacgaataggcatgtcaagcaattcataatttaatttaagaccagtagcaaatgaggaagatacatatgaaaatgtggatccagggtcaaataatacaaaagccatgcaatcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0080C13.2" temp_strand="-" temp_description="C00HBa0080C13.2  CU929469.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0080C13 sequenced_by:sanger upload_account_name:uk">
        <position start="49931" stop="49007"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49632" g_stop="49307" g_length="326"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="326" r_length="326" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0080C13.2" gen_strand="-" ref_id="SGN-U591718" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>326</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0080C13.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U591718" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49632" e_stop="49307"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGATCTGTCCCAGGCTTGGCTAACGTCATAGTTTTAGCATTACAATCCAAGATTGCAAAATTCGGAGAAAGCCAGGTCATACCCAGAATTACATCGAAGTCAACCATTTCTAAGATAACCAAGTCTACATGAGTATTGCTCCCCACAAAAGTCACAAGACAAGACCTATACACCTTTTCAACTATCACAGACTCACCCACCGGAGTAGAAACACGAATAGGTATGTCAAGCAATTCACAATGTAAATTAAGACCATTAGCAAATAAGGAAGATACATAAGAAAAAGTGGATCCATGACCAAACAACACAGAAGCCATGCAATCAC</genome_strand>
        <mrna_strand>GGGATCTGTCCCAGGCTTGGCTAACGTCACAGTTTTAGCATTACAATCCAAGATTGCAAAATTTGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTCTAAGATAACCAAGTCTACATAAGTATTGCTCCCCACAAAAGTCACCAGACCAGACCTATATACTTTTTCAACTATCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCATGTCAAGCAATTCATAATTTAATTTAAGACCAGTAGCAAATGAGGAAGATACATATGAAAATGTGGATCCAGGGTCAAATAATACAAAAGCCATGCAATCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U592023" ref_strand="+" ref_description="SGN-U592023 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|113205363|gb|AAT66771.2| (e_value=2e-56) Putative; ">
      <seq>ttacttcggcacgaggatttgatcctgcctccacattttcatatgtatcttcctcatttgctactgttcttaatttacatagtgaatcgcttgacatacctattcgtgttctactccggtgggtgagtctgtgattgttgaaaaggtgtataggtcttgtcttgtgacatttgtgggagcaatactcatgtagacttggttatcctataaatggttgacttcgatgtaattctgggtatgacttggctgtctccaaattttgcaatcttggattgtaatgctaaaactgtaacgttggccaagcctgagatagatgcgttagtgtgggagggtgactacacttccactccagttcgtatcatctcctttctttgtgctaagagaatggttagtaaagggtgtttagctttcttggcacacctcagggatgatactacccaagtaccttcaattgagtcagtttcgatagtccgtgagtttctggatgtgtttcctgcagaccttcctggtatgccaccggatagggatattgacttttgcattgatctggagccgggtgatcaccccatttccatacccccttatagaatggctcccgctgagttgggggagttaaaggcccaacttcaagagttgttangtaagggcttcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0080C13.2" temp_strand="+" temp_description="C00HBa0080C13.2  CU929469.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0080C13 sequenced_by:sanger upload_account_name:uk">
        <position start="49030" stop="50268"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49342" g_stop="49968" g_length="627"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="654" r_length="625" r_score="0.914"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0080C13.2" gen_strand="+" ref_id="SGN-U592023" ref_strand="+">
        <total_alignment_score>0.914</total_alignment_score>
        <cumulative_length_of_scored_exons>627</cumulative_length_of_scored_exons>
        <coverage percentage="0.959" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0080C13.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U592023" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49342" e_stop="49968"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCACTTTTTCTTATGTATCTTCCTTATTTGCTAATGGTCTTAATTTACATTGTGAATTGCTTGACATACCTATTCGTGTTTCTACTCCGGTGGGTGAGTCTGTGATAGTTGAAAAGGTGTATAGGTCTTGTCTTGTGACTTTTGTGGGGAGCAATACTCATGTAGACTTGGTTATCTTAGAAATGGTTGACTTCGATGTAATTCTGGGTATGACCTGGCTTTCTCCGAATTTTGCAATCTTGGATTGTAATGCTAAAACTATGACGTTAGCCAAGCCTGGGACAGATCCGTTAGTGTGGGAGGGTGACTACACTTCCAATCCGGTTCGTATCGTCTCCTTTATTCGTGCTAAGAGAATGGTTAGTAAGGGTTGTTTAGCTTTCTTGGCACACCTCAGGGATGATACTACCCAAGTACCTTCAATCGAGTCGGTTGCGATAGTCTGCGAGTTTTTAGATGTGTTTCCTGCAGACCTTCCTGGTATGCCACCGGATAGAGATATTGACTTCTGCATCGATCTTGAACCGGGTACTCGACCCATTTCTATACCCCCTTATAGAATGGCTCTCGCTGAGTTAAGGGGGTTAAAGGCCCAACTTCAAGAGTTGTTGAGCAAAGGCTTCATT</genome_strand>
        <mrna_strand>TCCACATTTTCATATGTATCTTCCTCATTTGCTACTGTTCTTAATTTACATAGTGAATCGCTTGACATACCTATTCGTG-TTCTACTCCGGTGGGTGAGTCTGTGATTGTTGAAAAGGTGTATAGGTCTTGTCTTGTGACATTTGT-GGGAGCAATACTCATGTAGACTTGGTTATCCTATAAATGGTTGACTTCGATGTAATTCTGGGTATGACTTGGCTGTCTCCAAATTTTGCAATCTTGGATTGTAATGCTAAAACTGTAACGTTGGCCAAGCCTGAGATAGATGCGTTAGTGTGGGAGGGTGACTACACTTCCACTCCAGTTCGTATCATCTCCTTTCTTTGTGCTAAGAGAATGGTTAGTAAAGGGTGTTTAGCTTTCTTGGCACACCTCAGGGATGATACTACCCAAGTACCTTCAATTGAGTCAGTTTCGATAGTCCGTGAGTTTCTGGATGTGTTTCCTGCAGACCTTCCTGGTATGCCACCGGATAGGGATATTGACTTTTGCATTGATCTGGAGCCGGGTGATCACCCCATTTCCATACCCCCTTATAGAATGGCTCCCGCTGAGTTGGGGGAGTTAAAGGCCCAACTTCAAGAGTTGTTANGTAAGGGCTTCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U595866" ref_strand="+" ref_description="SGN-U595866 Tomato 200607#2 [1 ESTs aligned] ">
      <seq>ggaagactatttgataaaaaaaacatttttatgtgataaagaatatgtgttattctgtttggagaaaaaaaagacttttgtagttttgtactccatgagaaatgttagtgtgtctgatttttgtagactagaaacttttgctgttttatactttggataaattggactatgcaattggtttgaagaatatgaaaacttcacataataagtcagtgttgtacttttgattttctataaacttcaatgtaatatagaaataaattgtacaatttttttgtccttattgttagtatttaaaatactaagtggtatgtctatttatgatagaggaaaaataccagtgacttagaatttgtgattttgtgtctctatgcaatgaagtttgacattgtttaaacattgtcaaagagaattgcagcactataattctttcgtagaataatgttttcaacattaaaatatgtggaaaaactattttcaaatacttgaaaaatatttttgagatcacatttgaaatgtgggggttatttgcctatgattagacttggtgtctaatttaattttggagcaaaagatatgaaattcaataatacttttgtattatgttatacccacaaaattcttggnntatattcggtattgtggttgttgagtttctctaatactagtatatagtgncactagtatgaaacatccaaattatatat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0080C13.2" temp_strand="+" temp_description="C00HBa0080C13.2  CU929469.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0080C13 sequenced_by:sanger upload_account_name:uk">
        <position start="97282" stop="98587"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97582" g_stop="98287" g_length="706"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="707" r_length="707" r_score="0.914"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0080C13.2" gen_strand="+" ref_id="SGN-U595866" ref_strand="+">
        <total_alignment_score>0.914</total_alignment_score>
        <cumulative_length_of_scored_exons>706</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0080C13.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U595866" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97582" e_stop="98287"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAGAATATTTGATAAGAAAAACATTTCTATGTGATAAAAAATATGTGTTATTCTGTTTGAGAAAAAAAAAGACTTTTGTAGTTTTGTACTCCATGAGAAATGTTAGTACGTCTGATTTTTGTAGACTCAAAACTTTTGTGGTTTAATACTCTGGACAAATGTGACTATGCAATTGGTTTGAAGAAT-TTAAAATTTCACATAATAAGTCAGTGTTGTACTTTTGATTTTCTATAAACTTCAATGTACTATAGAAATAATTTGTACAATTTATTTTGTCCTTATTGTTAGTATTTAAAATA-TAAGTGGTATGTCTATTTATGATAGAGAAAAAATACAAGTGACTTATAATTTGTGATTTTGTGTCTCTATGGAATGAACTTTGATATTGTGTAAACATTGTCAAAGAGAATTGCAGCACTATAATTCTTTCGTAGAATAATGTTTCCTACATTAAAATATGTGAAAAAACTATTTTCAAATACTTGAAAAATATTTTTGAGATCACATTTGAAATGTGGGGATTATTTTTTTAAGATTAGACTTGGTGTCTAGTTTAACTTAGGAGCAAAATATATGAAATTCAATAATACATTTGTATTGGGTTATACCCACAAAACTATTGGAGTATATTTGATATTGTGGTTGTTGTGTTTCTCTATTACTAGTTTATAGAGTGACTAGTATGAAACATCCAAATTATATAT</genome_strand>
        <mrna_strand>GGAAGACTATTTGATAAAAAAAACATTTTTATGTGATAAAGAATATGTGTTATTCTGTTTGGAGAAAAAAAAGACTTTTGTAGTTTTGTACTCCATGAGAAATGTTAGTGTGTCTGATTTTTGTAGACTAGAAACTTTTGCTGTTTTATACTTTGGATAAATTGGACTATGCAATTGGTTTGAAGAATATGAAAACTTCACATAATAAGTCAGTGTTGTACTTTTGATTTTCTATAAACTTCAATGTAATATAGAAATAAATTGTACAATTT-TTTTGTCCTTATTGTTAGTATTTAAAATACTAAGTGGTATGTCTATTTATGATAGAGGAAAAATACCAGTGACTTAGAATTTGTGATTTTGTGTCTCTATGCAATGAAGTTTGACATTGTTTAAACATTGTCAAAGAGAATTGCAGCACTATAATTCTTTCGTAGAATAATGTTTTCAACATTAAAATATGTGGAAAAACTATTTTCAAATACTTGAAAAATATTTTTGAGATCACATTTGAAATGTGGGGGTTATTTGCCTATGATTAGACTTGGTGTCTAATTTAATTTTGGAGCAAAAGATATGAAATTCAATAATACTTTTGTATTATGTTATACCCACAAAATTCTTGGNNTATATTCGGTATTGTGGTTGTTGAGTTTCTCTAATACTAGTATATAGTGNCACTAGTATGAAACATCCAAATTATATAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U575265" ref_strand="+" ref_description="SGN-U575265 Tomato 200607#2 [3 ESTs aligned] (*GB) gi|113205316|gb|ABI34339.1| (e_value=2e-65) Polyprotein,; (*SWP) sp|P04323|POL3_DROME (e_value=2e-11) Retrovirus-related Pol polyprotein from transposon 17.6 OS=Drosophila melanogaster GN=pol; ">
      <seq>ggcctctgtaagaatagtgtgaatcaaatcgtcggcacggggtacacatacctttcccttaatcctcaaaacaccttccttatcgatttttgcttctttagcctctcctcgcattaccttatctcgaatccagatcagtttctcatcggtaaactgctttcctttaatcttatcaagaaaggaagatcttgcctccacacaagccaaaaattctcccttctcatttaattctagcctcataaggtcattagccagagtctgaacctctctagccaatgggcatctagaaacctgcaagtgagctagacttcccatgctccctgcctttctacttaaagcatctgccacaacattagcctttcccggatgatacaagatagtgatatcatagtccttcagtagctccatcgatctcctctgtctcaaattcaaatctttctgagtaaagacatactgtaaactacgatgatccatatagacttcacacttaaccccatagagataatgtctctattactttaatgcaatcactactgccgctaactccaaatcatgggtcggataattacgttcatgcacctttaattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0080C13.2" temp_strand="-" temp_description="C00HBa0080C13.2  CU929469.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0080C13 sequenced_by:sanger upload_account_name:uk">
        <position start="115993" stop="114807"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="115694" g_stop="115107" g_length="588"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="588" r_length="588" r_score="0.910"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0080C13.2" gen_strand="-" ref_id="SGN-U575265" ref_strand="+">
        <total_alignment_score>0.910</total_alignment_score>
        <cumulative_length_of_scored_exons>588</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0080C13.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U575265" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="115694" e_stop="115107"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCCTCTGTAAGAATGGTGTGAATCAAATCATCGACACGGGGTAAACATACCCTTCCCTTAATCCTCAAAACACCTTCCTCATTTATTTTTGCTTCTATAGCCTCTCCTCGCAATACCTTATCTCGAATCCGAATCAGTTTCTCATCAGTAAACTGCTTCTCCTTAATCTTGTCAAGAAAGGAAGATCTTGCCTCCACACGGGCCAAAAATCCTCCCTTCTCATTTACTTCTAGCCTCATAATGTCATTAGCCTGAGTTTTAACCTCTCTAGCCAATGGGCGTCTAGAAATCTGCAGGTGAGCTAGACTTCCCATGCTCCCTGCTTTTCTACTTAACGCATTTGCCACAACATTAGCTTTTCCCAGATGATACAAGATAGTGATATCATAGTCCTTCAGTAGTTCCATCCACCTCCTCTGTCTCAAATTCAATTTTTTCTGAGTAAAGACATACTGTAAACTACAATGATCCGTATAGACTTCACATTTAACCCCAAATAGATAATGTCTACATTGCTTTAATGCAAACACTACCGCAGCCAACTCCAAATTATTGGTCGGATAATTACGTTCATGCACCTTTAATTG</genome_strand>
        <mrna_strand>GGCCTCTGTAAGAATAGTGTGAATCAAATCGTCGGCACGGGGTACACATACCTTTCCCTTAATCCTCAAAACACCTTCCTTATCGATTTTTGCTTCTTTAGCCTCTCCTCGCATTACCTTATCTCGAATCCAGATCAGTTTCTCATCGGTAAACTGCTTTCCTTTAATCTTATCAAGAAAGGAAGATCTTGCCTCCACACAAGCCAAAAATTCTCCCTTCTCATTTAATTCTAGCCTCATAAGGTCATTAGCCAGAGTCTGAACCTCTCTAGCCAATGGGCATCTAGAAACCTGCAAGTGAGCTAGACTTCCCATGCTCCCTGCCTTTCTACTTAAAGCATCTGCCACAACATTAGCCTTTCCCGGATGATACAAGATAGTGATATCATAGTCCTTCAGTAGCTCCATCGATCTCCTCTGTCTCAAATTCAAATCTTTCTGAGTAAAGACATACTGTAAACTACGATGATCCATATAGACTTCACACTTAACCCCATAGAGATAATGTCTCTATTACTTTAATGCAATCACTACTGCCGCTAACTCCAAATCATGGGTCGGATAATTACGTTCATGCACCTTTAATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U595872" ref_strand="+" ref_description="SGN-U595872 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|113205316|gb|ABI34339.1| (e_value=4e-95) Polyprotein,; (*SWP) sp|Q7LHG5|YI31B_YEAST (e_value=9e-27) Transposon Ty3-I Gag-Pol polyprotein OS=Saccharomyces cerevisiae GN=TY3B-I; ">
      <seq>gtccgagataaggtgttgcgaggagaggctaaagaagcaaaaatcaatgaggaatgtgttttgagaattaagggaagggtatgtgtaccccgcaccgatgatttgattcacactattcttacggaggctcatagttcaaggtattctatacatcctggtgcaaccaagatgtatcgtgacctaaagcaacatttttggtggagtaggatgaagcgtgacattgttgattttgttgctcaatgcccgaattgtcagcaagtaaagtatgaacaccaaaggcctggagggacacttcagagaatgcccattcctgaatggaagtgggagagaattgaaatggacttcgtggttggtctccaaagacaatgggtaagtatgacaccatatgggtaattgttgacagattaactaagtctgctcatttcattccggtcaaagtgacttataatgcagagaagttagccaaactttacatctcagaaattgtttgattgcatggaattccactttccattatatcagatagagttacgcagtttacttctaaattttggaaaacattgcatgccgagttaggtactaggttagatcttagtactgcattttaccctcagaccgatggtcagtctgagcgaataatttangtcttggaggatatgcttcgtgcatgtgtgatagaatttagtggncattgggataacttcttacncttagcanaattctcatacnacaatagctatcactca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0080C13.2" temp_strand="+" temp_description="C00HBa0080C13.2  CU929469.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0080C13 sequenced_by:sanger upload_account_name:uk">
        <position start="115267" stop="116610"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="115566" g_stop="116311" g_length="746"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="746" r_length="746" r_score="0.903"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0080C13.2" gen_strand="+" ref_id="SGN-U595872" ref_strand="+">
        <total_alignment_score>0.903</total_alignment_score>
        <cumulative_length_of_scored_exons>746</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0080C13.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-U595872" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="115566" e_stop="116311"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCGAGATAAGGTATTGCGAGGAGAGGCTATAGAAGCAAAAATAAATGAGGAAGGTGTTTTGAGGATTAAGGGAAGGGTATGTTTACCCCGTGTCGATGATTTGATTCACACCATTCTTACAGAGGCTCATAGTTCAAGGTATTCTATACATCCTGGTGCAACCAAGATGTATCGCGACCTAAAGCAACATTTTTGGTGGAGTAGAATGAAGCGGGACATCGTTGATTTTGTTGCTCAATGCCCGAATTGTCAGGAGGTAAAGTATGAACACCAGAGGCCTGGAGGGACACTTCTGAGAATGCCCATTCCGCAATGGAAGTAGGAGAGAATTGCAATGAACTTTGTGGTTGGTCTTCCAAAGACAATGGGTAAGTATGACTCTATTTGGGTGATTGTTGATAGGTTAACTAAGTCTGCTCACTTCATTCCGGCTAAGGTGACTTACAATGCAGAGAAGTTAGCCAAACTCTACATCTCAGAAATTGTTCGATTGCATGGGGTTTCACTCTCCATCATATCAGATAGAGGTACGCAGTTTACTTCTAAGTTTT-GAAAATATTGCATGCTGAATTAGGTACTAGATTAGATCTTAGTACTGCATTTCACCCTCAGATCGATGGTCAGTCTGAGCGAACGATTCAGGTTTTGGAGGATATGCTTCGTGCATGTGTGATAGAGTTTGGTGGTCATTGGGATAACTTCTTACCCTTATGAGAGTTCTCATAAAACAATAGCTATCACTCG</genome_strand>
        <mrna_strand>GTCCGAGATAAGGTGTTGCGAGGAGAGGCTAAAGAAGCAAAAATCAATGAGGAATGTGTTTTGAGAATTAAGGGAAGGGTATGTGTACCCCGCACCGATGATTTGATTCACACTATTCTTACGGAGGCTCATAGTTCAAGGTATTCTATACATCCTGGTGCAACCAAGATGTATCGTGACCTAAAGCAACATTTTTGGTGGAGTAGGATGAAGCGTGACATTGTTGATTTTGTTGCTCAATGCCCGAATTGTCAGCAAGTAAAGTATGAACACCAAAGGCCTGGAGGGACACTTCAGAGAATGCCCATTCCTGAATGGAAGTGGGAGAGAATTGAAATGGACTTCGTGGTTGGTC-TCCAAAGACAATGGGTAAGTATGACACCATATGGGTAATTGTTGACAGATTAACTAAGTCTGCTCATTTCATTCCGGTCAAAGTGACTTATAATGCAGAGAAGTTAGCCAAACTTTACATCTCAGAAATTGTTTGATTGCATGGAATTCCACTTTCCATTATATCAGATAGAGTTACGCAGTTTACTTCTAAATTTTGGAAAACATTGCATGCCGAGTTAGGTACTAGGTTAGATCTTAGTACTGCATTTTACCCTCAGACCGATGGTCAGTCTGAGCGAATAATTTANGTCTTGGAGGATATGCTTCGTGCATGTGTGATAGAATTTAGTGGNCATTGGGATAACTTCTTACNCTTAGCANAATTCTCATACNACAATAGCTATCACTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U595870" ref_strand="+" ref_description="SGN-U595870 Tomato 200607#2 [1 ESTs aligned] (*GB) gi|113205363|gb|AAT66771.2| (e_value=4e-63) Putative; (*SWP) sp|Q9UR07|RT23_SCHPO (e_value=4e-20) Retrotransposable element Tf2 155 kDa protein type 3 OS=Schizosaccharomyces pombe GN=Tf2-11; ">
      <seq>ctcggcatgtactgttttccaaaacttagaagtaaattgcgtacctctatctgatatgatggagagtggaactccgtgcaatcgaacaatttctaagatgtaaagtttggctaacttctctgcattgtaagtcaccttaaccgaaatagagtgagcagacttagttaatctgtcaacaatcacccaaatagagtcatacctacccatcgtctttggatgactaaccacgaagtccattgcaattctctcccacttccattcaggaatgggcattctctgaagtgtccctccaggcctctggtgttcatactttacttgctgacaattcgggcattgagcaacaaaattaacaatgtcacgcttcatcctactccaccaaaaatgttgctttaggtcacgatacatcttgtttgcaccaggatgtatagagtacttcgaactatgagcctatataagaatagtgtgaatcaaatcatcgacgcggggtacacatac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0080C13.2" temp_strand="-" temp_description="C00HBa0080C13.2  CU929469.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0080C13 sequenced_by:sanger upload_account_name:uk">
        <position start="116436" stop="115344"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="116137" g_stop="115644" g_length="494"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="495" r_length="495" r_score="0.909"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0080C13.2" gen_strand="-" ref_id="SGN-U595870" ref_strand="+">
        <total_alignment_score>0.909</total_alignment_score>
        <cumulative_length_of_scored_exons>494</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0080C13.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U595870" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="116137" e_stop="115644"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAGCATGCAATATTTT-CAAAACTTAGAAGTAAACTGCGTACCTCTATCTGATATGATGGAGAGTGAAACCCCATGCAATCGAACAATTTCTGAGATGTAGAGTTTGGCTAACTTCTCTGCATTGTAAGTCACCTTAGCCGGAATGAAGTGAGCAGACTTAGTTAACCTATCAACAATCACCCAAATAGAGTCATACTTACCCATTGTCTTTGGAAGACCAACCACAAAGTTCATTGCAATTCTCTCCTACTTCCATTGCGGAATGGGCATTCTCAGAAGTGTCCCTCCAGGCCTCTGGTGTTCATACTTTACCTCCTGACAATTCGGGCATTGAGCAACAAAATCAACGATGTCCCGCTTCATTCTACTCCACCAAAAATGTTGCTTTAGGTCGCGATACATCTTGGTTGCACCAGGATGTATAGAATACCTTGAACTATGAGCCTCTGTAAGAATGGTGTGAATCAAATCATCGACACGGGGTAAACATAC</genome_strand>
        <mrna_strand>CTCGGCATGTACTGTTTTCCAAAACTTAGAAGTAAATTGCGTACCTCTATCTGATATGATGGAGAGTGGAACTCCGTGCAATCGAACAATTTCTAAGATGTAAAGTTTGGCTAACTTCTCTGCATTGTAAGTCACCTTAACCGAAATAGAGTGAGCAGACTTAGTTAATCTGTCAACAATCACCCAAATAGAGTCATACCTACCCATCGTCTTTGGATGACTAACCACGAAGTCCATTGCAATTCTCTCCCACTTCCATTCAGGAATGGGCATTCTCTGAAGTGTCCCTCCAGGCCTCTGGTGTTCATACTTTACTTGCTGACAATTCGGGCATTGAGCAACAAAATTAACAATGTCACGCTTCATCCTACTCCACCAAAAATGTTGCTTTAGGTCACGATACATCTTGTTTGCACCAGGATGTATAGAGTACTTCGAACTATGAGCCTATATAAGAATAGTGTGAATCAAATCATCGACGCGGGGTACACATAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_U_tomato" ref_id="SGN-U575264" ref_strand="+" ref_description="SGN-U575264 Tomato 200607#2 [2 ESTs aligned] (*GB) gi|113205363|gb|AAT66771.2| (e_value=2e-67) Putative; (*SWP) sp|Q9UR07|RT23_SCHPO (e_value=5e-21) Retrotransposable element Tf2 155 kDa protein type 3 OS=Schizosaccharomyces pombe GN=Tf2-11; ">
      <seq>acccaattccgcatgcaatgttttccaaaacttagaagtaaactgcatacctctatctgatatgatggagagtggaaccccatgcaaccgaacaatttctgagacatatattttggctaacttctctgcattgtaagtcaccttgaccggaatgaaatgagcagacttagttaacctatcaacaatcacccaaatagagtcatacttactcattgtctttggaaggccaactacaaaatccattgcaattctctcccacttccattcaggaatgagcattctctgaagtgttcctccaggcctctggtgttcatactttacttgttgacagtttggacatttggcaataaagtcaacaatatcacgcttcattctactccaccaaaagtgttgctttaggtcacggtacatcttggttgcacccggatgtatagaataccttgaactatgagcctctgtcagaatagtgttgatcaaatcatcaactcggggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00HBa0080C13-Su98d/GenomeThreader_SGN_U_tomato/un_xed_seqs" temp_id="C00HBa0080C13.2" temp_strand="-" temp_description="C00HBa0080C13.2  CU929469.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0080C13 sequenced_by:sanger upload_account_name:uk">
        <position start="116443" stop="115352"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="116143" g_stop="115654" g_length="490"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="491" r_length="491" r_score="0.900"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00HBa0080C13.2" gen_strand="-" ref_id="SGN-U575264" ref_strand="+">
        <total_alignment_score>0.900</total_alignment_score>
        <cumulative_length_of_scored_exons>490</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00HBa0080C13.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-U575264" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="116143" e_stop="115654"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCTAATTCAGCATGCAATATTTT-CAAAACTTAGAAGTAAACTGCGTACCTCTATCTGATATGATGGAGAGTGAAACCCCATGCAATCGAACAATTTCTGAGATGTAGAGTTTGGCTAACTTCTCTGCATTGTAAGTCACCTTAGCCGGAATGAAGTGAGCAGACTTAGTTAACCTATCAACAATCACCCAAATAGAGTCATACTTACCCATTGTCTTTGGAAGACCAACCACAAAGTTCATTGCAATTCTCTCCTACTTCCATTGCGGAATGGGCATTCTCAGAAGTGTCCCTCCAGGCCTCTGGTGTTCATACTTTACCTCCTGACAATTCGGGCATTGAGCAACAAAATCAACGATGTCCCGCTTCATTCTACTCCACCAAAAATGTTGCTTTAGGTCGCGATACATCTTGGTTGCACCAGGATGTATAGAATACCTTGAACTATGAGCCTCTGTAAGAATGGTGTGAATCAAATCATCGACACGGG</genome_strand>
        <mrna_strand>ACCCAATTCCGCATGCAATGTTTTCCAAAACTTAGAAGTAAACTGCATACCTCTATCTGATATGATGGAGAGTGGAACCCCATGCAACCGAACAATTTCTGAGACATATATTTTGGCTAACTTCTCTGCATTGTAAGTCACCTTGACCGGAATGAAATGAGCAGACTTAGTTAACCTATCAACAATCACCCAAATAGAGTCATACTTACTCATTGTCTTTGGAAGGCCAACTACAAAATCCATTGCAATTCTCTCCCACTTCCATTCAGGAATGAGCATTCTCTGAAGTGTTCCTCCAGGCCTCTGGTGTTCATACTTTACTTGTTGACAGTTTGGACATTTGGCAATAAAGTCAACAATATCACGCTTCATTCTACTCCACCAAAAGTGTTGCTTTAGGTCACGGTACATCTTGGTTGCACCCGGATGTATAGAATACCTTGAACTATGAGCCTCTGTCAGAATAGTGTTGATCAAATCATCAACTCGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>8</total_number_ESTs_reported>
    </alignment_module>
  <PGL_module xmlns="http://www.genomethreader.org/GTH_output/PGL_module/">
    <predicted_gene_location>
      <PGL_line PGL_serial="1" PGL_strand="+" PGL_start="47941" PGL_stop="48496"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="47941" e_stop="48496"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.910"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.910">
            <gDNA_exon_boundary e_start="47941" e_stop="48496" e_length="556"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="47941" stop="48496"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U590648" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GCACCTGGCCCATCTGGTACTAGGGCGGTGACTCTTCCACCAACTGAGGAAGTGTTAAGAGAGGGTGAGGAAGGGGAAAATGAGCAAGTGCAGAATGAGGAATTACCACCCCAACCTCTCACAGAGATGATCAACCAGGTTCTTGCCTATCTTAGCGGGTTATCTGATCAAGGTCAGACACCTTCAGTGTTTTCTGCACCAGCACCTTAGGTTCCGGAGGTAAAACATGCAGCTACTGTGGCTCCCCACATGGATGCCTCATTGGAAATAGGCACGTTTCCCCGGTTGACTACAGGGCCTATAATGACAAGTGATAAGCATGAACTTTTTAGTAAGTTCTTGAAATTGAAACCCCCAGTCTTCAAGGGTGCTGAATCTGAGAATGCCTATGAGTTTCTGGTTGATTGTCATGAGCTACTACACAAGATGGGTATAGTAGAACGATTTGGCGTTGAGTTTGTGACTTATCAGTTTCAAGAGAATGCCAAAATGTGGTGGCGGTCACATGTTGACTGTCAACCAACAGAGGCACCACCTATGACTTGGGTATCATTCT</gDNA_template>
            <first_frame> A  P  G  P  S  G  T  R  A  V  T  L  P  P  T  E  E  V  L  R  E  G  E  E  G  E  N  E  Q  V  Q  N  E  E  L  P  P  Q  P  L  T  E  M  I  N  Q  V  L  A  Y  L  S  G  L  S  D  Q  G  Q  T  P  S  V  F  S  A  P  A  P  *  V  P  E  V  K  H  A  A  T  V  A  P  H  M  D  A  S  L  E  I  G  T  F  P  R  L  T  T  G  P  I  M  T  S  D  K  H  E  L  F  S  K  F  L  K  L  K  P  P  V  F  K  G  A  E  S  E  N  A  Y  E  F  L  V  D  C  H  E  L  L  H  K  M  G  I  V  E  R  F  G  V  E  F  V  T  Y  Q  F  Q  E  N  A  K  M  W  W  R  S  H  V  D  C  Q  P  T  E  A  P  P  M  T  W  V  S  F  </first_frame>
            <second_frame>  H  L  A  H  L  V  L  G  R  *  L  F  H  Q  L  R  K  C  *  E  R  V  R  K  G  K  M  S  K  C  R  M  R  N  Y  H  P  N  L  S  Q  R  *  S  T  R  F  L  P  I  L  A  G  Y  L  I  K  V  R  H  L  Q  C  F  L  H  Q  H  L  R  F  R  R  *  N  M  Q  L  L  W  L  P  T  W  M  P  H  W  K  *  A  R  F  P  G  *  L  Q  G  L  *  *  Q  V  I  S  M  N  F  L  V  S  S  *  N  *  N  P  Q  S  S  R  V  L  N  L  R  M  P  M  S  F  W  L  I  V  M  S  Y  Y  T  R  W  V  *  *  N  D  L  A  L  S  L  *  L  I  S  F  K  R  M  P  K  C  G  G  G  H  M  L  T  V  N  Q  Q  R  H  H  L  *  L  G  Y  H  S </second_frame>
            <third_frame>   T  W  P  I  W  Y  *  G  G  D  S  S  T  N  *  G  S  V  K  R  G  *  G  R  G  K  *  A  S  A  E  *  G  I  T  T  P  T  S  H  R  D  D  Q  P  G  S  C  L  S  *  R  V  I  *  S  R  S  D  T  F  S  V  F  C  T  S  T  L  G  S  G  G  K  T  C  S  Y  C  G  S  P  H  G  C  L  I  G  N  R  H  V  S  P  V  D  Y  R  A  Y  N  D  K  *  *  A  *  T  F  *  *  V  L  E  I  E  T  P  S  L  Q  G  C  *  I  *  E  C  L  *  V  S  G  *  L  S  *  A  T  T  Q  D  G  Y  S  R  T  I  W  R  *  V  C  D  L  S  V  S  R  E  C  Q  N  V  V  A  V  T  C  *  L  S  T  N  R  G  T  T  Y  D  L  G  I  I   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0080C13.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="48151" stop="48495"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>345</number_coding_nucleotides>
                  <number_encoded_amino_acids>115</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VPEVKHAATVAPHMDASLEIGTFPRLTTGPIMTSDKHELFSKFLKLKPPVFKGAESENAYEFLVDCHELLHKMGIVERFGVEFVTYQFQENAKMWWRSHVDCQPTEAPPMTWVSF</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0080C13.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="47941" stop="48150"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>207</number_coding_nucleotides>
                  <number_encoded_amino_acids>69</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>APGPSGTRAVTLPPTEEVLREGEEGENEQVQNEELPPQPLTEMINQVLAYLSGLSDQGQTPSVFSAPAP*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="-" PGL_start="49632" PGL_stop="49307"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="49632" e_stop="49307"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.923"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.923">
            <gDNA_exon_boundary e_start="49632" e_stop="49307" e_length="326"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="49632" stop="49307"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U591718" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="2" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CGGATCTGTCCCAGGCTTGGCTAACGTCATAGTTTTAGCATTACAATCCAAGATTGCAAAATTCGGAGAAAGCCAGGTCATACCCAGAATTACATCGAAGTCAACCATTTCTAAGATAACCAAGTCTACATGAGTATTGCTCCCCACAAAAGTCACAAGACAAGACCTATACACCTTTTCAACTATCACAGACTCACCCACCGGAGTAGAAACACGAATAGGTATGTCAAGCAATTCACAATGTAAATTAAGACCATTAGCAAATAAGGAAGATACATAAGAAAAAGTGGATCCATGACCAAACAACACAGAAGCCATGCAATCAC</gDNA_template>
            <first_frame> R  I  C  P  R  L  G  *  R  H  S  F  S  I  T  I  Q  D  C  K  I  R  R  K  P  G  H  T  Q  N  Y  I  E  V  N  H  F  *  D  N  Q  V  Y  M  S  I  A  P  H  K  S  H  K  T  R  P  I  H  L  F  N  Y  H  R  L  T  H  R  S  R  N  T  N  R  Y  V  K  Q  F  T  M  *  I  K  T  I  S  K  *  G  R  Y  I  R  K  S  G  S  M  T  K  Q  H  R  S  H  A  I   </first_frame>
            <second_frame>  G  S  V  P  G  L  A  N  V  I  V  L  A  L  Q  S  K  I  A  K  F  G  E  S  Q  V  I  P  R  I  T  S  K  S  T  I  S  K  I  T  K  S  T  *  V  L  L  P  T  K  V  T  R  Q  D  L  Y  T  F  S  T  I  T  D  S  P  T  G  V  E  T  R  I  G  M  S  S  N  S  Q  C  K  L  R  P  L  A  N  K  E  D  T  *  E  K  V  D  P  *  P  N  N  T  E  A  M  Q  S  </second_frame>
            <third_frame>   D  L  S  Q  A  W  L  T  S  *  F  *  H  Y  N  P  R  L  Q  N  S  E  K  A  R  S  Y  P  E  L  H  R  S  Q  P  F  L  R  *  P  S  L  H  E  Y  C  S  P  Q  K  S  Q  D  K  T  Y  T  P  F  Q  L  S  Q  T  H  P  P  E  *  K  H  E  *  V  C  Q  A  I  H  N  V  N  *  D  H  *  Q  I  R  K  I  H  K  K  K  W  I  H  D  Q  T  T  Q  K  P  C  N  H </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C00HBa0080C13.2"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="+" PGL_start="49342" PGL_stop="49968"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="49342" e_stop="49968"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.914"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.914">
            <gDNA_exon_boundary e_start="49342" e_stop="49968" e_length="627"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="49342" stop="49968"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U592023" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TCCACTTTTTCTTATGTATCTTCCTTATTTGCTAATGGTCTTAATTTACATTGTGAATTGCTTGACATACCTATTCGTGTTTCTACTCCGGTGGGTGAGTCTGTGATAGTTGAAAAGGTGTATAGGTCTTGTCTTGTGACTTTTGTGGGGAGCAATACTCATGTAGACTTGGTTATCTTAGAAATGGTTGACTTCGATGTAATTCTGGGTATGACCTGGCTTTCTCCGAATTTTGCAATCTTGGATTGTAATGCTAAAACTATGACGTTAGCCAAGCCTGGGACAGATCCGTTAGTGTGGGAGGGTGACTACACTTCCAATCCGGTTCGTATCGTCTCCTTTATTCGTGCTAAGAGAATGGTTAGTAAGGGTTGTTTAGCTTTCTTGGCACACCTCAGGGATGATACTACCCAAGTACCTTCAATCGAGTCGGTTGCGATAGTCTGCGAGTTTTTAGATGTGTTTCCTGCAGACCTTCCTGGTATGCCACCGGATAGAGATATTGACTTCTGCATCGATCTTGAACCGGGTACTCGACCCATTTCTATACCCCCTTATAGAATGGCTCTCGCTGAGTTAAGGGGGTTAAAGGCCCAACTTCAAGAGTTGTTGAGCAAAGGCTTCATT</gDNA_template>
            <first_frame> S  T  F  S  Y  V  S  S  L  F  A  N  G  L  N  L  H  C  E  L  L  D  I  P  I  R  V  S  T  P  V  G  E  S  V  I  V  E  K  V  Y  R  S  C  L  V  T  F  V  G  S  N  T  H  V  D  L  V  I  L  E  M  V  D  F  D  V  I  L  G  M  T  W  L  S  P  N  F  A  I  L  D  C  N  A  K  T  M  T  L  A  K  P  G  T  D  P  L  V  W  E  G  D  Y  T  S  N  P  V  R  I  V  S  F  I  R  A  K  R  M  V  S  K  G  C  L  A  F  L  A  H  L  R  D  D  T  T  Q  V  P  S  I  E  S  V  A  I  V  C  E  F  L  D  V  F  P  A  D  L  P  G  M  P  P  D  R  D  I  D  F  C  I  D  L  E  P  G  T  R  P  I  S  I  P  P  Y  R  M  A  L  A  E  L  R  G  L  K  A  Q  L  Q  E  L  L  S  K  G  F  I </first_frame>
            <second_frame>  P  L  F  L  M  Y  L  P  Y  L  L  M  V  L  I  Y  I  V  N  C  L  T  Y  L  F  V  F  L  L  R  W  V  S  L  *  *  L  K  R  C  I  G  L  V  L  *  L  L  W  G  A  I  L  M  *  T  W  L  S  *  K  W  L  T  S  M  *  F  W  V  *  P  G  F  L  R  I  L  Q  S  W  I  V  M  L  K  L  *  R  *  P  S  L  G  Q  I  R  *  C  G  R  V  T  T  L  P  I  R  F  V  S  S  P  L  F  V  L  R  E  W  L  V  R  V  V  *  L  S  W  H  T  S  G  M  I  L  P  K  Y  L  Q  S  S  R  L  R  *  S  A  S  F  *  M  C  F  L  Q  T  F  L  V  C  H  R  I  E  I  L  T  S  A  S  I  L  N  R  V  L  D  P  F  L  Y  P  L  I  E  W  L  S  L  S  *  G  G  *  R  P  N  F  K  S  C  *  A  K  A  S   </second_frame>
            <third_frame>   H  F  F  L  C  I  F  L  I  C  *  W  S  *  F  T  L  *  I  A  *  H  T  Y  S  C  F  Y  S  G  G  *  V  C  D  S  *  K  G  V  *  V  L  S  C  D  F  C  G  E  Q  Y  S  C  R  L  G  Y  L  R  N  G  *  L  R  C  N  S  G  Y  D  L  A  F  S  E  F  C  N  L  G  L  *  C  *  N  Y  D  V  S  Q  A  W  D  R  S  V  S  V  G  G  *  L  H  F  Q  S  G  S  Y  R  L  L  Y  S  C  *  E  N  G  *  *  G  L  F  S  F  L  G  T  P  Q  G  *  Y  Y  P  S  T  F  N  R  V  G  C  D  S  L  R  V  F  R  C  V  S  C  R  P  S  W  Y  A  T  G  *  R  Y  *  L  L  H  R  S  *  T  G  Y  S  T  H  F  Y  T  P  L  *  N  G  S  R  *  V  K  G  V  K  G  P  T  S  R  V  V  E  Q  R  L  H  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0080C13.2" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="49342" stop="49968"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>627</number_coding_nucleotides>
                  <number_encoded_amino_acids>209</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>STFSYVSSLFANGLNLHCELLDIPIRVSTPVGESVIVEKVYRSCLVTFVGSNTHVDLVILEMVDFDVILGMTWLSPNFAILDCNAKTMTLAKPGTDPLVWEGDYTSNPVRIVSFIRAKRMVSKGCLAFLAHLRDDTTQVPSIESVAIVCEFLDVFPADLPGMPPDRDIDFCIDLEPGTRPISIPPYRMALAELRGLKAQLQELLSKGFI</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="+" PGL_start="97582" PGL_stop="98287"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="97582" e_stop="98287"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.914"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.914">
            <gDNA_exon_boundary e_start="97582" e_stop="98287" e_length="706"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97582" stop="98287"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U595866" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GGAAGAATATTTGATAAGAAAAACATTTCTATGTGATAAAAAATATGTGTTATTCTGTTTGAGAAAAAAAAAGACTTTTGTAGTTTTGTACTCCATGAGAAATGTTAGTACGTCTGATTTTTGTAGACTCAAAACTTTTGTGGTTTAATACTCTGGACAAATGTGACTATGCAATTGGTTTGAAGAATTTAAAATTTCACATAATAAGTCAGTGTTGTACTTTTGATTTTCTATAAACTTCAATGTACTATAGAAATAATTTGTACAATTTATTTTGTCCTTATTGTTAGTATTTAAAATATAAGTGGTATGTCTATTTATGATAGAGAAAAAATACAAGTGACTTATAATTTGTGATTTTGTGTCTCTATGGAATGAACTTTGATATTGTGTAAACATTGTCAAAGAGAATTGCAGCACTATAATTCTTTCGTAGAATAATGTTTCCTACATTAAAATATGTGAAAAAACTATTTTCAAATACTTGAAAAATATTTTTGAGATCACATTTGAAATGTGGGGATTATTTTTTTAAGATTAGACTTGGTGTCTAGTTTAACTTAGGAGCAAAATATATGAAATTCAATAATACATTTGTATTGGGTTATACCCACAAAACTATTGGAGTATATTTGATATTGTGGTTGTTGTGTTTCTCTATTACTAGTTTATAGAGTGACTAGTATGAAACATCCAAATTATATAT</gDNA_template>
            <first_frame> G  R  I  F  D  K  K  N  I  S  M  *  *  K  I  C  V  I  L  F  E  K  K  K  D  F  C  S  F  V  L  H  E  K  C  *  Y  V  *  F  L  *  T  Q  N  F  C  G  L  I  L  W  T  N  V  T  M  Q  L  V  *  R  I  *  N  F  T  *  *  V  S  V  V  L  L  I  F  Y  K  L  Q  C  T  I  E  I  I  C  T  I  Y  F  V  L  I  V  S  I  *  N  I  S  G  M  S  I  Y  D  R  E  K  I  Q  V  T  Y  N  L  *  F  C  V  S  M  E  *  T  L  I  L  C  K  H  C  Q  R  E  L  Q  H  Y  N  S  F  V  E  *  C  F  L  H  *  N  M  *  K  N  Y  F  Q  I  L  E  K  Y  F  *  D  H  I  *  N  V  G  I  I  F  L  R  L  D  L  V  S  S  L  T  *  E  Q  N  I  *  N  S  I  I  H  L  Y  W  V  I  P  T  K  L  L  E  Y  I  *  Y  C  G  C  C  V  S  L  L  L  V  Y  R  V  T  S  M  K  H  P  N  Y  I  </first_frame>
            <second_frame>  E  E  Y  L  I  R  K  T  F  L  C  D  K  K  Y  V  L  F  C  L  R  K  K  K  T  F  V  V  L  Y  S  M  R  N  V  S  T  S  D  F  C  R  L  K  T  F  V  V  *  Y  S  G  Q  M  *  L  C  N  W  F  E  E  F  K  I  S  H  N  K  S  V  L  Y  F  *  F  S  I  N  F  N  V  L  *  K  *  F  V  Q  F  I  L  S  L  L  L  V  F  K  I  *  V  V  C  L  F  M  I  E  K  K  Y  K  *  L  I  I  C  D  F  V  S  L  W  N  E  L  *  Y  C  V  N  I  V  K  E  N  C  S  T  I  I  L  S  *  N  N  V  S  Y  I  K  I  C  E  K  T  I  F  K  Y  L  K  N  I  F  E  I  T  F  E  M  W  G  L  F  F  *  D  *  T  W  C  L  V  *  L  R  S  K  I  Y  E  I  Q  *  Y  I  C  I  G  L  Y  P  Q  N  Y  W  S  I  F  D  I  V  V  V  V  F  L  Y  Y  *  F  I  E  *  L  V  *  N  I  Q  I  I  Y </second_frame>
            <third_frame>   K  N  I  *  *  E  K  H  F  Y  V  I  K  N  M  C  Y  S  V  *  E  K  K  R  L  L  *  F  C  T  P  *  E  M  L  V  R  L  I  F  V  D  S  K  L  L  W  F  N  T  L  D  K  C  D  Y  A  I  G  L  K  N  L  K  F  H  I  I  S  Q  C  C  T  F  D  F  L  *  T  S  M  Y  Y  R  N  N  L  Y  N  L  F  C  P  Y  C  *  Y  L  K  Y  K  W  Y  V  Y  L  *  *  R  K  N  T  S  D  L  *  F  V  I  L  C  L  Y  G  M  N  F  D  I  V  *  T  L  S  K  R  I  A  A  L  *  F  F  R  R  I  M  F  P  T  L  K  Y  V  K  K  L  F  S  N  T  *  K  I  F  L  R  S  H  L  K  C  G  D  Y  F  F  K  I  R  L  G  V  *  F  N  L  G  A  K  Y  M  K  F  N  N  T  F  V  L  G  Y  T  H  K  T  I  G  V  Y  L  I  L  W  L  L  C  F  S  I  T  S  L  *  S  D  *  Y  E  T  S  K  L  Y   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C00HBa0080C13.2"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="-" PGL_start="116143" PGL_stop="115107"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="116143" e_stop="115107"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.910"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.910">
            <gDNA_exon_boundary e_start="116143" e_stop="115107" e_length="1037"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="116143" stop="115654"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U575264" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="116137" stop="115644"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U595870" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="115694" stop="115107"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U575265" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="5" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ACCTAATTCAGCATGCAATATTTTCAAAACTTAGAAGTAAACTGCGTACCTCTATCTGATATGATGGAGAGTGAAACCCCATGCAATCGAACAATTTCTGAGATGTAGAGTTTGGCTAACTTCTCTGCATTGTAAGTCACCTTAGCCGGAATGAAGTGAGCAGACTTAGTTAACCTATCAACAATCACCCAAATAGAGTCATACTTACCCATTGTCTTTGGAAGACCAACCACAAAGTTCATTGCAATTCTCTCCTACTTCCATTGCGGAATGGGCATTCTCAGAAGTGTCCCTCCAGGCCTCTGGTGTTCATACTTTACCTCCTGACAATTCGGGCATTGAGCAACAAAATCAACGATGTCCCGCTTCATTCTACTCCACCAAAAATGTTGCTTTAGGTCGCGATACATCTTGGTTGCACCAGGATGTATAGAATACCTTGAACTATGAGCCTCTGTAAGAATGGTGTGAATCAAATCATCGACACGGGGTAAACATACCCTTCCCTTAATCCTCAAAACACCTTCCTCATTTATTTTTGCTTCTATAGCCTCTCCTCGCAATACCTTATCTCGAATCCGAATCAGTTTCTCATCAGTAAACTGCTTCTCCTTAATCTTGTCAAGAAAGGAAGATCTTGCCTCCACACGGGCCAAAAATCCTCCCTTCTCATTTACTTCTAGCCTCATAATGTCATTAGCCTGAGTTTTAACCTCTCTAGCCAATGGGCGTCTAGAAATCTGCAGGTGAGCTAGACTTCCCATGCTCCCTGCTTTTCTACTTAACGCATTTGCCACAACATTAGCTTTTCCCAGATGATACAAGATAGTGATATCATAGTCCTTCAGTAGTTCCATCCACCTCCTCTGTCTCAAATTCAATTTTTTCTGAGTAAAGACATACTGTAAACTACAATGATCCGTATAGACTTCACATTTAACCCCAAATAGATAATGTCTACATTGCTTTAATGCAAACACTACCGCAGCCAACTCCAAATTATTGGTCGGATAATTACGTTCATGCACCTTTAATTG</gDNA_template>
            <first_frame> T  *  F  S  M  Q  Y  F  Q  N  L  E  V  N  C  V  P  L  S  D  M  M  E  S  E  T  P  C  N  R  T  I  S  E  M  *  S  L  A  N  F  S  A  L  *  V  T  L  A  G  M  K  *  A  D  L  V  N  L  S  T  I  T  Q  I  E  S  Y  L  P  I  V  F  G  R  P  T  T  K  F  I  A  I  L  S  Y  F  H  C  G  M  G  I  L  R  S  V  P  P  G  L  W  C  S  Y  F  T  S  *  Q  F  G  H  *  A  T  K  S  T  M  S  R  F  I  L  L  H  Q  K  C  C  F  R  S  R  Y  I  L  V  A  P  G  C  I  E  Y  L  E  L  *  A  S  V  R  M  V  *  I  K  S  S  T  R  G  K  H  T  L  P  L  I  L  K  T  P  S  S  F  I  F  A  S  I  A  S  P  R  N  T  L  S  R  I  R  I  S  F  S  S  V  N  C  F  S  L  I  L  S  R  K  E  D  L  A  S  T  R  A  K  N  P  P  F  S  F  T  S  S  L  I  M  S  L  A  *  V  L  T  S  L  A  N  G  R  L  E  I  C  R  *  A  R  L  P  M  L  P  A  F  L  L  N  A  F  A  T  T  L  A  F  P  R  *  Y  K  I  V  I  S  *  S  F  S  S  S  I  H  L  L  C  L  K  F  N  F  F  *  V  K  T  Y  C  K  L  Q  *  S  V  *  T  S  H  L  T  P  N  R  *  C  L  H  C  F  N  A  N  T  T  A  A  N  S  K  L  L  V  G  *  L  R  S  C  T  F  N   </first_frame>
            <second_frame>  P  N  S  A  C  N  I  F  K  T  *  K  *  T  A  Y  L  Y  L  I  *  W  R  V  K  P  H  A  I  E  Q  F  L  R  C  R  V  W  L  T  S  L  H  C  K  S  P  *  P  E  *  S  E  Q  T  *  L  T  Y  Q  Q  S  P  K  *  S  H  T  Y  P  L  S  L  E  D  Q  P  Q  S  S  L  Q  F  S  P  T  S  I  A  E  W  A  F  S  E  V  S  L  Q  A  S  G  V  H  T  L  P  P  D  N  S  G  I  E  Q  Q  N  Q  R  C  P  A  S  F  Y  S  T  K  N  V  A  L  G  R  D  T  S  W  L  H  Q  D  V  *  N  T  L  N  Y  E  P  L  *  E  W  C  E  S  N  H  R  H  G  V  N  I  P  F  P  *  S  S  K  H  L  P  H  L  F  L  L  L  *  P  L  L  A  I  P  Y  L  E  S  E  S  V  S  H  Q  *  T  A  S  P  *  S  C  Q  E  R  K  I  L  P  P  H  G  P  K  I  L  P  S  H  L  L  L  A  S  *  C  H  *  P  E  F  *  P  L  *  P  M  G  V  *  K  S  A  G  E  L  D  F  P  C  S  L  L  F  Y  L  T  H  L  P  Q  H  *  L  F  P  D  D  T  R  *  *  Y  H  S  P  S  V  V  P  S  T  S  S  V  S  N  S  I  F  S  E  *  R  H  T  V  N  Y  N  D  P  Y  R  L  H  I  *  P  Q  I  D  N  V  Y  I  A  L  M  Q  T  L  P  Q  P  T  P  N  Y  W  S  D  N  Y  V  H  A  P  L  I  </second_frame>
            <third_frame>   L  I  Q  H  A  I  F  S  K  L  R  S  K  L  R  T  S  I  *  Y  D  G  E  *  N  P  M  Q  S  N  N  F  *  D  V  E  F  G  *  L  L  C  I  V  S  H  L  S  R  N  E  V  S  R  L  S  *  P  I  N  N  H  P  N  R  V  I  L  T  H  C  L  W  K  T  N  H  K  V  H  C  N  S  L  L  L  P  L  R  N  G  H  S  Q  K  C  P  S  R  P  L  V  F  I  L  Y  L  L  T  I  R  A  L  S  N  K  I  N  D  V  P  L  H  S  T  P  P  K  M  L  L  *  V  A  I  H  L  G  C  T  R  M  Y  R  I  P  *  T  M  S  L  C  K  N  G  V  N  Q  I  I  D  T  G  *  T  Y  P  S  L  N  P  Q  N  T  F  L  I  Y  F  C  F  Y  S  L  S  S  Q  Y  L  I  S  N  P  N  Q  F  L  I  S  K  L  L  L  L  N  L  V  K  K  G  R  S  C  L  H  T  G  Q  K  S  S  L  L  I  Y  F  *  P  H  N  V  I  S  L  S  F  N  L  S  S  Q  W  A  S  R  N  L  Q  V  S  *  T  S  H  A  P  C  F  S  T  *  R  I  C  H  N  I  S  F  S  Q  M  I  Q  D  S  D  I  I  V  L  Q  *  F  H  P  P  P  L  S  Q  I  Q  F  F  L  S  K  D  I  L  *  T  T  M  I  R  I  D  F  T  F  N  P  K  *  I  M  S  T  L  L  *  C  K  H  Y  R  S  Q  L  Q  I  I  G  R  I  I  T  F  M  H  L  *  L </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0080C13.2" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="115947" stop="115711"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>234</number_coding_nucleotides>
                  <number_encoded_amino_acids>78</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SHTYPLSLEDQPQSSLQFSPTSIAEWAFSEVSLQASGVHTLPPDNSGIEQQNQRCPASFYSTKNVALGRDTSWLHQDV*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0080C13.2" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="115672" stop="115439"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>231</number_coding_nucleotides>
                  <number_encoded_amino_acids>77</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>IKSSTRGKHTLPLILKTPSSFIFASIASPRNTLSRIRISFSSVNCFSLILSRKEDLASTRAKNPPFSFTSSLIMSLA*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0080C13.2" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="3"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="115970" stop="115746"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>222</number_coding_nucleotides>
                  <number_encoded_amino_acids>74</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PINNHPNRVILTHCLWKTNHKVHCNSLLLPLRNGHSQKCPSRPLVFILYLLTIRALSNKINDVPLHSTPPKMLL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="+" PGL_start="115566" PGL_stop="116311"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="115566" e_stop="116311"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.903"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.903">
            <gDNA_exon_boundary e_start="115566" e_stop="116311" e_length="746"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="115566" stop="116311"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-U595872" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="6" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATTCGAGATAAGGTATTGCGAGGAGAGGCTATAGAAGCAAAAATAAATGAGGAAGGTGTTTTGAGGATTAAGGGAAGGGTATGTTTACCCCGTGTCGATGATTTGATTCACACCATTCTTACAGAGGCTCATAGTTCAAGGTATTCTATACATCCTGGTGCAACCAAGATGTATCGCGACCTAAAGCAACATTTTTGGTGGAGTAGAATGAAGCGGGACATCGTTGATTTTGTTGCTCAATGCCCGAATTGTCAGGAGGTAAAGTATGAACACCAGAGGCCTGGAGGGACACTTCTGAGAATGCCCATTCCGCAATGGAAGTAGGAGAGAATTGCAATGAACTTTGTGGTTGGTCTTCCAAAGACAATGGGTAAGTATGACTCTATTTGGGTGATTGTTGATAGGTTAACTAAGTCTGCTCACTTCATTCCGGCTAAGGTGACTTACAATGCAGAGAAGTTAGCCAAACTCTACATCTCAGAAATTGTTCGATTGCATGGGGTTTCACTCTCCATCATATCAGATAGAGGTACGCAGTTTACTTCTAAGTTTTGAAAATATTGCATGCTGAATTAGGTACTAGATTAGATCTTAGTACTGCATTTCACCCTCAGATCGATGGTCAGTCTGAGCGAACGATTCAGGTTTTGGAGGATATGCTTCGTGCATGTGTGATAGAGTTTGGTGGTCATTGGGATAACTTCTTACCCTTATGAGAGTTCTCATAAAACAATAGCTATCACTCG</gDNA_template>
            <first_frame> I  R  D  K  V  L  R  G  E  A  I  E  A  K  I  N  E  E  G  V  L  R  I  K  G  R  V  C  L  P  R  V  D  D  L  I  H  T  I  L  T  E  A  H  S  S  R  Y  S  I  H  P  G  A  T  K  M  Y  R  D  L  K  Q  H  F  W  W  S  R  M  K  R  D  I  V  D  F  V  A  Q  C  P  N  C  Q  E  V  K  Y  E  H  Q  R  P  G  G  T  L  L  R  M  P  I  P  Q  W  K  *  E  R  I  A  M  N  F  V  V  G  L  P  K  T  M  G  K  Y  D  S  I  W  V  I  V  D  R  L  T  K  S  A  H  F  I  P  A  K  V  T  Y  N  A  E  K  L  A  K  L  Y  I  S  E  I  V  R  L  H  G  V  S  L  S  I  I  S  D  R  G  T  Q  F  T  S  K  F  *  K  Y  C  M  L  N  *  V  L  D  *  I  L  V  L  H  F  T  L  R  S  M  V  S  L  S  E  R  F  R  F  W  R  I  C  F  V  H  V  *  *  S  L  V  V  I  G  I  T  S  Y  P  Y  E  S  S  H  K  T  I  A  I  T   </first_frame>
            <second_frame>  F  E  I  R  Y  C  E  E  R  L  *  K  Q  K  *  M  R  K  V  F  *  G  L  R  E  G  Y  V  Y  P  V  S  M  I  *  F  T  P  F  L  Q  R  L  I  V  Q  G  I  L  Y  I  L  V  Q  P  R  C  I  A  T  *  S  N  I  F  G  G  V  E  *  S  G  T  S  L  I  L  L  L  N  A  R  I  V  R  R  *  S  M  N  T  R  G  L  E  G  H  F  *  E  C  P  F  R  N  G  S  R  R  E  L  Q  *  T  L  W  L  V  F  Q  R  Q  W  V  S  M  T  L  F  G  *  L  L  I  G  *  L  S  L  L  T  S  F  R  L  R  *  L  T  M  Q  R  S  *  P  N  S  T  S  Q  K  L  F  D  C  M  G  F  H  S  P  S  Y  Q  I  E  V  R  S  L  L  L  S  F  E  N  I  A  C  *  I  R  Y  *  I  R  S  *  Y  C  I  S  P  S  D  R  W  S  V  *  A  N  D  S  G  F  G  G  Y  A  S  C  M  C  D  R  V  W  W  S  L  G  *  L  L  T  L  M  R  V  L  I  K  Q  *  L  S  L  </second_frame>
            <third_frame>   S  R  *  G  I  A  R  R  G  Y  R  S  K  N  K  *  G  R  C  F  E  D  *  G  K  G  M  F  T  P  C  R  *  F  D  S  H  H  S  Y  R  G  S  *  F  K  V  F  Y  T  S  W  C  N  Q  D  V  S  R  P  K  A  T  F  L  V  E  *  N  E  A  G  H  R  *  F  C  C  S  M  P  E  L  S  G  G  K  V  *  T  P  E  A  W  R  D  T  S  E  N  A  H  S  A  M  E  V  G  E  N  C  N  E  L  C  G  W  S  S  K  D  N  G  *  V  *  L  Y  L  G  D  C  *  *  V  N  *  V  C  S  L  H  S  G  *  G  D  L  Q  C  R  E  V  S  Q  T  L  H  L  R  N  C  S  I  A  W  G  F  T  L  H  H  I  R  *  R  Y  A  V  Y  F  *  V  L  K  I  L  H  A  E  L  G  T  R  L  D  L  S  T  A  F  H  P  Q  I  D  G  Q  S  E  R  T  I  Q  V  L  E  D  M  L  R  A  C  V  I  E  F  G  G  H  W  D  N  F  L  P  L  *  E  F  S  *  N  N  S  Y  H  S </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0080C13.2" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="115566" stop="115889"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>321</number_coding_nucleotides>
                  <number_encoded_amino_acids>107</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>IRDKVLRGEAIEAKINEEGVLRIKGRVCLPRVDDLIHTILTEAHSSRYSIHPGATKMYRDLKQHFWWSRMKRDIVDFVAQCPNCQEVKYEHQRPGGTLLRMPIPQWK*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00HBa0080C13.2" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="115890" stop="116120"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>228</number_coding_nucleotides>
                  <number_encoded_amino_acids>76</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ERIAMNFVVGLPKTMGKYDSIWVIVDRLTKSAHFIPAKVTYNAEKLAKLYISEIVRLHGVSLSIISDRGTQFTSKF*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 88 chains have been computed
$ 
$ memory statistics:
$ 17344 bytes spliced alignments in total
$ 8 spliced alignments have been stored
$ 2168 bytes was the average size of a spliced alignment
$ 11408 bytes predicted gene locations in total
$ 6 predicted gene locations have been stored
$ 1901 bytes was the average size of a predicted gene location
$ 8 megabytes was the average size of the backtrace matrix
$ 111 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 05:40:16
-->
